Physical Maps Available at CUGI

Aquilegia Physical Map

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View this physical map in GBrowse

High information content fingerprinting (HICF) technique, based on capillary electrophoresis and the SNaPshot labeling kit (Luo et al., 2003. Genomics, 82(3): 378-389), was used to construct a physical map for A. formosa. Library AF__Bb was constructed using HindIII enzyme and library AF__Bc using MboI enzyme, have been combined into a single physical map.

Release Date: Oct 7th, 2010

Chinese Chestnut Physical Map

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Two BAC libraries have been constructed using partial digestions with EcoRI (10X coverage) and HindIII (11X coverage). For more information on the libraries, please click here. BAC fingerprinting is based on high information content fingerprinting protocols (HICF) and standard capillary-based automated electrophoresis platforms/software. Contig analysis is being completed using FPC software. This map is available here and on the Fagaceae web site at http://www.fagaceae.org/.

Contigs: 6,532, Clones: 91,179, Singletons: 28,898
Physical Map Release Date: Feb 21, 2009 (first release)

Mimulus guttatus Physical Map

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High information content fingerprinting HICF) technique, based on capillary electrophoresis and the SNaPshot labeling kit (Luo et al., 2003. Genomics, 82(3): 378-389), is used to construct physical maps for both M. guttatus and M. lewisii. Both BAC libraries of M. guttatus, each containing 36,864 BAC clones, have been fingerprinted (96.2% and 95.2% success rate, respectively). The M. lewisii library with 36,864 clones has also been fingerprinted (98% success rate). To integrate the genetic and physical maps, gene-based markers are being anchored to all three Mimulus BAC libraries using an overgo pooling strategy. These two physical maps are also available at http://www.mimulusevolution.org/.

Clones: 56,624, Contigs: 2,535, Markers: 582, Singletons: 18,287
Physical Map Release Date: September 2, 2008 (eighth release)

Mimulus lewisii Physical Map

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High information content fingerprinting HICF) technique, based on capillary electrophoresis and the SNaPshot labeling kit (Luo et al., 2003. Genomics, 82(3): 378-389), is used to construct physical maps for both M. guttatus and M. lewisii. Both BAC libraries of M. guttatus, each containing 36,864 BAC clones, have been fingerprinted (96.2% and 95.2% success rate, respectively). The M. lewisii library with 36,864 clones has also been fingerprinted (98% success rate). To integrate the genetic and physical maps, gene-based markers are being anchored to all three Mimulus BAC libraries using an overgo pooling strategy. These two physical maps are also available at http://www.mimulusevolution.org.

Clones: 33,163, Contigs: 1,913, Markers: 448, Singletons: 2,106
Physical Map Release Date: Septempber 2, 2008 (seventh release)

Rainbow Trout Physical Map - 1st Generation

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Dr. Yniv Palti, a research geneticist at the USDA ARS in Kearneysville, WV, in collaboration with Dr. Luo at UC Davis, has produced the first physical map of the rainbow trout (Oncorhynchus mykiss). The project will ultimately lead to an integrated genetic and physical map. The genomic resources in this economically important aquaculture species will ultimately help realize genetically improved strains of fish. CUGI is hosting the physical map.

View the second generation physical map for trout

Rainbow Trout Physical Map - 2nd Generation

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Dr. Yniv Palti, a research geneticist at the USDA ARS National Center for Cool and Cold Water Aquaculture in Leetown, WV and Dr. Ming-Cheng Luo from the University of California, Davis, produced a 2nd generation physical map of the rainbow trout (Oncorhynchus mykiss) genome. The project has led to an integrated genetic and physical map, which was produced in collaboration with Dr. Carine Genet at INRA, France. The genomic resources in this economically important aquaculture species will ultimately help realize genetically improved strains of fish.

Rainbow Trout Physical Map - 3rd Generation

Dr. Yniv Palti, a research geneticist at the USDA ARS National Center for Cool and Cold Water Aquaculture in Leetown, WV and Dr. Ming-Cheng Luo from the University of California, Davis, produced the third version of the physical map of the rainbow trout (Oncorhynchus mykiss) genome. The physical map is integrated with the genetic map through microsatellite markers that were isolated from the physical map BACs. The integrated genetic and physical map was produced in collaboration with Dr. Carine Genet at INRA, France.